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At least 55 records · Page 3Linked to original sources

Time in human endurance models. From empirical models to physiological models.

This article traces the study of interrelationships between power output, work done, velocity maintained or distance covered and the endurance time taken to achieve that objective. During the first half of the twentieth century, scientists examined world running records for distances from < 100 m to > 1000 km. Such examinations were empirical in nature, involving mainly graphical and crude curve-fitting techniques. These and later studies developed the use of distance/time or power/time models and attempted to use the parameters of these models to characterise the endurance capabilities of athletes. More recently, physiologists have proposed theoretical models based on the bioenergetic characteristics of humans (i.e. maximal power, maximal aerobic and anaerobic capacity and the control dynamics of the system). These models have become increasingly complex but they do not provide sound physiological and mathematical descriptions of the human bioenergetic system and its observed performance ability. Finally, we are able to propose new parameters that can be integrated into the modelling of the power/time relationship to explain the variability in endurance time limit at the same relative exercise power (e.g. 100% maximal oxygen uptake).

Energy Metabolism↗

[Mucus models for investigation of intestinal absorption mechanisms. 4. Comparison of mucus models with absorption models in vivo and in situ for prediction of intestinal drug absorption].

Intestinal absorption with an in vitro model using pig intestinal mucus was examined by means of in vivo and in situ experiments in the rat. With 10 compounds of different structure, in vitro, in situ, and in vivo models were tested. The in vitro model in the present form can only simulate the first step of intestinal absorption, namely diffusion through the mucus layer. Indeed, we found that one function of the intestinal mucus can be described being a molecular sieve with a molecular mass (MM) cut off within the range of about 600 to 700 [g/mol]. Absorption of substances with higher molecular mass remains at a low level. With the mucus model prediction of intestinal absorption of hydrophilic substances with MM < 600 to 700 [g/mol] will be possible, if the mass transport in the mucus layer is rate limiting. Independent of polarity, it is also valid for substances of MM > 600 to 700 [g/mol]. Estimation however, is not valid for lipophilic substances and MM < 600 to 700 [g/mol], when mass transport from the mucus to the adjacent compartments is rate limiting. Further optimization of the mucus model for a more extensive application seems possible and reasonable with respect to saving in vivo experiments with animals.

Animals↗

Use of individual-based forest succession models to link physiological whole-tree models to landscape-scale ecosystem models.

Models of the spatial and temporal dynamics of forests that are based on competition between individual plants can be used to predict changes in the abundance of different tree species that result from natural succession or environmental change. These individual-based models can be designed to take into account important physiological and chemical properties of individual species, and thus provide a mechanism for scaling up the predictions of whole-plant physiological process models to intermediate-scale patterns in ecosystems and landscapes. Because plant species differ greatly in such properties as carbon fixation and evapotranspiration rates, models that predict species composition could provide information on the distribution of parameter values used as input for large-scale (e.g., "big leaf") models of regional vegetation-atmosphere interactions.

Journal Article↗

Degeneracy of time series models: the best model is not always the correct model.

There are a number of good techniques for finding, in some sense, the best model of a deterministic system given a time series of observations. We examine a problem called model degeneracy, which has the consequence that even when a perfect model of a system exists, one does not find it using the best techniques currently available. The problem is illustrated using global polynomial models and the theory of Grobner bases.

Algorithms↗

In vitro models, in vivo models, and pharmacokinetics: what can we learn from in vitro models?

In vitro pharmacokinetic models of infection can make an important contribution to the study of the pharmacodynamic properties of an antibacterial agent. In conjunction with animal and human pharmacodynamic evaluations, they provide data to allow for the optimization of drug dosing regimens. In vitro models can be used simply to describe the effect of a drug on a bacterial population as well as to provide data for more-analytical studies, including hypothesis testing. Analytical study designs provide information on the pharmacodynamic parameter best related to the chosen outcome, as well as its magnitude. Factors such as the characteristics of the model (method of drug removal, inoculum density, and growth phase), doses simulated, species and susceptibility range of bacteria, and methods and analytical tools used to measure antibacterial effect will have an effect on the conclusions drawn. In vitro models have an important future role in ensuring antibiotic efficacy and in reducing the risks of resistance.

Animals↗

One-compartment urea kinetic modeling is not acceptable for quantifying the adequacy of hemodialysis: comparison of a one-compartment model with a two-compartment model.

We can quantify the adequacy of hemodialysis (HD) as the dialysis dose using urea kinetic modeling (UKM). Though the one-compartment model (1CM) has frequently been applied, there are some studies which have successfully applied the two-compartment model (2CM) including urea rebound. To clarify whether 1CM or 2CM is more acceptable, we analyzed 100 patients using UKM, applying each model. The dialysis dose was defined as the logarithm of pre-/post-HD urea volume in the body. In about half the patients analyzed, 1CM estimation of the dialysis dose exceeded 2CM estimation by more than 10%, and the 1CM was not considered to be acceptable.

Adult↗

Modeling of human monoamine oxidase A: from low resolution threading models to accurate comparative models based on crystal structures.

The recently published crystal structure of monoamine oxidase (MAO) B was a major breakthrough for structural and functional understanding of flavin containing amine oxidases: it opens a new era of research and provides new opportunities to those interested in the biochemistry and pharmacology of those important drug targets. In particular, it allowed accurate modeling of human MAO A, both proteins sharing over 70% sequence identity. In the present contribution, we summarize the efforts made in order to obtain structural information on the human MAO A, including sequence analysis, secondary structure predictions, and preliminary models obtained by fold recognition and comparative modeling based on proteins sharing low sequence identity.

Amino Acid Sequence↗

A likelihood-based extended admixture model of oligogenic inheritance in 'model-based' and 'model-free' analysis.

The admixture test of linkage heterogeneity is the most often and most successfully applied oligogenic-model linkage and/or LD analysis method. Full two-locus model linkage analysis is possible, but can be computationally intensive and difficult to interpret because of the need to specify so many indeterminate parameters. A novel, computationally efficient method is proposed for combining single locus lod scores which can allow for varying degrees of epistatic interaction. This method can be applied to two-point or multipoint (using complex-valued recombination fractions) linkage and/or linkage disequilibrium analysis to jointly test for multiple unlinked disease loci. Unlike the traditional admixture test, this algorithm permits joint analysis of multiple disease loci with different modes of inheritance for each, and can be applied to 'model-free' analysis as well through the use of 'pseudomarkers'. Software is available for computation of the various likelihood ratio tests described, for comparison of a variety of possible hypotheses regarding locus homogeneity, locus heterogeneity, and epistasis.

Algorithms↗

Nonmathematical models for evolution of altruism, and for group selection (peck order-territoriality-ant colony-dual-determinant model-tri-determinant model).

Mathematical biologists have failed to produce a satisfactory general model for evolution of altruism, i.e., of behaviors by which "altruists" benefit other individuals but not themselves; kin selection does not seem to be a sufficient explanation of nonreciprocal altruism. Nonmathematical (but mathematically acceptable) models are now proposed for evolution of negative altruism in dual-determinant and of positive altruism in tri-determinant systems. Peck orders, territorial systems, and an ant society are analyzed as examples. In all models, evolution is primarily by individual selection, probably supplemented by group selection. Group selection is differential extinction of populations. It can act only on populations preformed by selection at the individual level, but can either cancel individual selective trends (effecting evolutionary homeostasis) or supplement them; its supplementary effect is probably increasingly important in the evolution of increasingly organized populations.

Animals↗

Model of protein folding: incorporation of a one-dimensional short-range (Ising) model into a three-dimensional model.

In this paper, we have incorporated a one-dimensional short-range model into a three-dimensional model for protein folding. It has been applied, by extending the concept of the three-step mechanism for protein folding proposed in our previous paper, to simulate the folding of bovine pancreatic trypsin inhibitor, using a Monte Carlo procedure in all three steps, A, B, and C. The statistical mechanical ensemble treatment of the short-range model serves as a constraint on the Monte Carlo procedure, in which conformational transitions are introduced. The preliminary results of 10 independent Monte Carlo trials indicate that, while folding is achieved, improvements are required in order to account for the correct three-dimensional structure of a globular protein.

Methods↗

An experimental asthma model in unanesthetized rat, and the difference in effect of disodium cromoglycate between passive cutaneous anaphylaxis model and asthma model in rat.

We established here the experimental asthma model in unanesthetized rat, based on the observation of breathing. The effect of disodium cromoglycate (DSCG) was compared between the passive cutaneous anaphylaxis (PCA) model in rat and our experimental asthma model. The systemic anaphylaxis was elicited, in the rat passively sensitized with reaginic antibodies (reagin) against DNP-As, in response to challenge with antigen. The longer duration of expiration than that of inspiration was observed in the thoracic breathing of antigen-treated rats. The proportion of animals showing this respiratory distress in thoracic breathing (RDTB) was related to the concentration of antiserum used for the sensitization. The relation between RDTB and the concentration of antiserum was more manifest when the degree of RDTB was considered as a score. Inhibition of DSCG was dose-dependent on RDTB and reagin-induced PCA at more than 1 mg/kg. The maximal inhibition of DSCG (20 mg/kg, i.v.) on RDTB or PCA was observed when it was given 30 s before the challenge with antigen. The effect on RDTB decreased gradually with time after dose, and lasted beyond 60 min similar to the inhibitory activity of DSCG on antigen-induced asthmatic reaction in patients. Whereas, the effect on PCA decreased rapidly, and disappeared within 30 min after dose. These results indicate that RDTB is a principal indicator of respiratory distress induced by reagin, and that the effect of DSCG in asthmatics may be explained by its inhibitory activity on RDTB rather than that on PCA.

Anaphylaxis↗

Factors governing the three-dimensional hydrogen-bond network structure of poly(m-phenylene isophthalamide) and a series of its model compounds (4): similarity in local conformation and packing structure between a complicated three-arm model compound and the linear model compounds.

Crystal structure of a three-arm model compound of poly(m-phenylene isophthalamide) (PMIA), N,N',N' '-triphenyl trimesamide Phi(CONHPhi)(3), has been analyzed by the X-ray diffraction method. The torsional angles around the bonds connecting the amide group and the central benzene ring are 24-34 degrees , almost the same as those observed for many kinds of aromatic amide compounds, reflecting mainly the intramolecular energetic balance between the amide and benzene groups. On the other hand, the torsional angles around the bonds connecting the amide group and the outer benzene ring were found to distribute over a wide range of 2-51 degrees due to the additional effect of intermolecular interactions. This is the first example to show experimentally clearly the role of intra- and intermolecular interactions in the control of torsional angle around the benzene-amide linkage. The hydrogen bonds are formed between the amide groups of the neighboring molecules, resulting in the construction of three-dimensional network structure. The local packing structure of the three-arm compound was found to be essentially the same as those observed for PMIA and the linear model compounds, indicating a characteristic structural feature of the meta-linkage-type aromatic amide compounds. The energy calculation was made using the software Polymorph Predictor to extract the energetically most stable crystal structure, which was compared successfully with the X-ray analyzed structure.

Journal Article↗

Model appropriateness and population pharmacokinetic modeling.

The purpose of this study was to define model appropriateness, identifying the individual elements thereof, and to set out a framework within which model appropriateness could be determined for population pharmacokinetic (PPK) models. Model appropriateness was defined by stating the problem to be solved, with the intended use of the model being the pivotal event. The elements of model appropriateness were identified with the type of model (descriptive vs. predictive) determining which elements of model appropriateness need to be executed. An example is presented to show how model appropriateness is determined for the optimal application of PPK models. It was determined that PPK models are developed to solve problems. Model appropriateness depends on identifying the problem, as well as stating the intended use of the model, and requires evaluation of the model for goodness of fit, reliability, and stability if intended for descriptive purposes; for predictive models, validation would be an additional requirement. Descriptive models are used to explain variability in the pharmacokinetics (PK) of a drug, while predictive models are developed to extrapolate beyond the immediate study population. For those models used for predictive purposes, strong assumptions are made about the relationship to the underlying population from which the data were collected. As an example of determining model appropriateness, a PPK model for 5-fluorocytosine was developed, using NONMEM, version IV. The model was evaluated and validated by the process of percentile bootstrapping. From the PPK model, the range of expected serum concentrations based on two widely used dosing methods (Sanford and the University of California at San Diego [UCSD]) was simulated (Pharsight Trial Designer software). These results indicated that the UCSD method performed well and has the advantage of recommending convenient dosing intervals. In conclusion, considering and applying the principles of model appropriateness to PPK models will result in models that can be applied for their intended use with confidence. Model appropriateness was efficiently established and determined to address the problem of comparing competing dosing strategies.

Adult↗

Tertiary structure of RNase Pch1 predicted from the model structure of RNase Ms and the crystal structure of RNase T1. Comparison among the model structures--testing the limits of modelling by homology.

In this paper we predict the structure of RNase Pch1 as modelled from the previously predicted structure of RNase Ms and the crystal structure of RNase T1 in the complex with 2'GMP. The predicted structures and their initial energy minimized structural RNase T1 template are compared. The predicted structures of RNase Pch1 show, independent of their prediction form RNase Ms or T1, a higher structural similarity to RNase T1 than to RNase Ms, in agreement with higher sequence similarity and specificity - RNases T1 and Pch1 are specific for guanine whereas RNase Ms is base-unspecific with preference for guanine.

Amino Acid Sequence↗

The model for human population dynamics as a part of the global biosphere model: some aspects of modeling in a dialogue regime.

"A matrix model for an age structured population with 4 groups is presented.... The demography matrix is identified with data from global demographic statistics for the 1970s. When calibrating the matrix elements, a semi-formal procedure was used to calculate the dominant eigenvalue and corresponding eigenvector. This procedure was based essentially on the dialogue mode of computation provided by the programing language APL." The advantages of using APL are discussed

Demography↗

[Synthesis of radiological models and radiological invariants (constants). (Part 3: synthesis of population-phenomenological models and Klepper model)].

The goal of this work was to synthesize Klepper mathematical models (MM), which describes the probability of post-radiation complications (PRC) in tissue subjected to radiation therapy with given scheme of dose fractionating (DF), and population-phenomenological (PP) MMs PP3 and PP4, which describe equivalent DF schemes for a fixed PRC value. Construction of synthesized MMs (SMMs) becomes possible only on the basis of several assumptions requiring further clinical validation. Synthesized MMs can be used for determination of the optimal dynamic conditions of irradiation of malignant tumors. These conditions include the optimal physical plan of irradiation and the optimal time scheme of its implementation. Synthesis of MMs leads to determination of radiological invariants (constants), which can become a basis for a new branch of medical science, quantitative radiology.

Mathematics↗

[Synthesis of radiological models and radiological constants. Part 4: Synthesis of population-phenomenological models and Lyman model].

The goal of this work was to synthesize Lyman mathematical models (MM), which describe the probability of post-radiation complications (PRC) in tissue subjected to radiation therapy with given scheme of dose fractionating (DF), and population-phenomenological (PP) MMs PP3 and PP4, which describe equivalent DF schemes for a fixed PRC value. Construction of synthesized MMs (SMMs) becomes possible only on the basis of several assumptions requiring further clinical validation. Synthesized MMs can be used for determination of the optimal dynamic conditions of irradiation of malignant tumors. These conditions include the optimal physical plan of irradiation and the optimal time scheme of its implementation. Synthesis of MMs leads to determination of radiological invariants (constants), which can become a basis for a new branch of medical science, quantitative radiology.

Dose-Response Relationship, Radiation↗

Animal models of epilepsy for the development of antiepileptogenic and disease-modifying drugs. A comparison of the pharmacology of kindling and post-status epilepticus models of temporal lobe epilepsy.

Control of epilepsy has primarily focused on suppressing seizure activity by antiepileptic drugs (AEDs) after epilepsy has developed. AEDs have greatly improved the lives of people with epilepsy. However, the belief that AEDs, in addition to suppressing seizures, alter the underlying epileptogenic process and, in doing so, the course of the disease and its prognosis, is not supported by the current clinical and experimental data. An intriguing possibility is to control acquired epilepsy by preventing epileptogenesis, the process by which the brain becomes epileptic. A number of AEDs have been evaluated in clinical trials to test whether they prevent epileptogenesis in humans, but to date no drug has been shown to be effective in such trials. Thus, there is a pressing need for drugs that are truly antiepileptogenic to either prevent epilepsy or alter its natural course. For this purpose, animal models of epilepsy are an important prerequisite. There are various animal models with chronic brain dysfunctions thought to reflect the processes underlying human epilepsy. Such chronic models of epilepsy include the kindling model of temporal lobe epilepsy (TLE), post-status models of TLE in which epilepsy develops after a sustained status epilepticus, and genetic models of different types of epilepsy. Currently, the kindling model and post-status models, such as the pilocarpine or kainate models, are the most widely used models for studies on epileptogenic processes and on drug targets by which epilepsy can be prevented or modified. Furthermore, the seizures in these models can be used for testing of antiepileptic drug effects. A comparison of the pharmacology of chronic models with models of acute (reactive or provoked) seizures in previously healthy (non-epileptic) animals, such as the maximal electroshock seizure test, demonstrates that drug testing in chronic models of epilepsy yields data which are more predictive of clinical efficacy and adverse effects, so that chronic models should be used relatively early in drug development to minimize false positives. Interestingly, the pharmacology of elicited kindled seizures in fully kindled rats and spontaneous recurrent seizures in post-status models is remarkably similar. However, when these models are used for studying the antiepileptogenic effects of drugs, marked differences between models exist, indicating that the processes underlying epileptogenesis differ among models, even among different post-status models of TLE. A problem for clinical validation of TLE models is the lack of an AED, which effectively prevents epilepsy in humans. Thus, at present, it is not possible to judge which chronic model is best suited for developing new strategies in the search for antiepileptogenic and disease-modifying drugs, but rather a battery of models should be used to avoid false negative or positive predictions.

Acute Disease↗